GREMLIN Database
SirB - Invasion gene expression up-regulator, SirB
PFAM: PF04247 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_10
Length: 120 (120)
Sequences: 5074 (3771)
Seq/√Len: 344.2
META: 0.851

GREMLIN Results:

Legend: The darker and larger the blue dots, the higher coevolution strength.

Residue pairs sorted by coevolution strength:
i j Sco Prob
23_G101_F3.2131.00
16_G108_F3.1181.00
11_A48_L2.4871.00
4_L55_A2.2641.00
86_I100_A2.0321.00
83_L107_V1.9531.00
25_W38_V1.9481.00
85_T90_R1.9121.00
36_R40_I1.9051.00
9_V12_V1.8951.00
85_T89_K1.8511.00
54_I58_V1.8391.00
11_A45_I1.8211.00
76_L110_Y1.8121.00
6_H10_T1.7771.00
21_L25_W1.7171.00
7_L11_A1.7061.00
83_L103_A1.6951.00
77_L111_I1.6941.00
2_L6_H1.5981.00
94_R98_A1.5721.00
51_A55_A1.5681.00
29_G94_R1.5571.00
110_Y113_S1.5441.00
27_L98_A1.5071.00
79_V107_V1.5021.00
25_W32_W1.4641.00
55_A59_I1.4601.00
82_V85_T1.4561.00
91_G96_V1.4541.00
110_Y114_V1.4401.00
45_I52_S1.4331.00
14_L45_I1.4101.00
76_L111_I1.4031.00
37_W41_L1.3651.00
63_Y71_T1.3611.00
24_L28_A1.3611.00
25_W30_S1.3551.00
65_F71_T1.3531.00
103_A107_V1.3521.00
90_R93_T1.3501.00
4_L59_I1.3371.00
62_Q71_T1.3141.00
16_G105_L1.2691.00
26_M33_L1.2681.00
3_A6_H1.2641.00
13_A17_A1.2631.00
63_Y66_V1.2581.00
32_W35_A1.2581.00
53_A74_L1.2461.00
7_L48_L1.2041.00
72_A76_L1.1401.00
25_W33_L1.1391.00
96_V100_A1.1271.00
20_V101_F1.1211.00
82_V86_I1.1181.00
26_M94_R1.1151.00
53_A57_A1.0971.00
95_R99_A1.0931.00
9_V13_A1.0861.00
57_A63_Y1.0841.00
112_V116_L1.0711.00
57_A71_T1.0431.00
35_A38_V1.0281.00
101_F105_L1.0141.00
57_A60_L1.0121.00
40_I44_V1.0071.00
20_V105_L0.9981.00
5_K9_V0.9841.00
40_I43_H0.9751.00
26_M88_L0.9551.00
83_L100_A0.9551.00
15_S80_Y0.9511.00
16_G20_V0.9451.00
105_L109_A0.9391.00
26_M97_R0.9371.00
20_V24_L0.9341.00
26_M91_G0.9281.00
62_Q67_Q0.9241.00
113_S119_S0.9171.00
46_D80_Y0.9031.00
60_L67_Q0.8921.00
64_P71_T0.8901.00
72_A77_L0.8881.00
23_G27_L0.8831.00
49_L53_A0.8651.00
78_V81_I0.8601.00
113_S117_T0.8591.00
86_I96_V0.8501.00
47_T51_A0.8431.00
21_L38_V0.8411.00
60_L118_K0.8401.00
78_V82_V0.8331.00
61_G64_P0.8271.00
85_T88_L0.8251.00
64_P67_Q0.8221.00
99_A103_A0.8001.00
68_G71_T0.7831.00
76_L114_V0.7741.00
55_A58_V0.7681.00
46_D50_L0.7651.00
41_L45_I0.7611.00
108_F112_V0.7581.00
68_G72_A0.7511.00
114_V119_S0.7481.00
14_L18_L0.7461.00
71_T75_V0.7451.00
93_T96_V0.7411.00
13_A116_L0.7391.00
57_A64_P0.7300.99
7_L52_S0.7290.99
61_G67_Q0.7280.99
13_A112_V0.7240.99
38_V41_L0.7210.99
72_A110_Y0.7200.99
3_A7_L0.7170.99
62_Q66_V0.7170.99
63_Y67_Q0.7150.99
30_S33_L0.7060.99
95_R98_A0.6970.99
32_W37_W0.6940.99
81_I84_G0.6940.99
15_S46_D0.6920.99
96_V99_A0.6840.99
67_Q71_T0.6820.99
92_R96_V0.6810.99
71_T74_L0.6780.99
6_H9_V0.6780.99
18_L38_V0.6770.99
12_V52_S0.6760.99
82_V90_R0.6620.99
17_A21_L0.6610.99
6_H11_A0.6600.99
11_A52_S0.6570.99
28_A31_P0.6480.99
24_L101_F0.6460.99
57_A62_Q0.6360.99
69_W73_K0.6340.98
19_F87_A0.6340.98
6_H13_A0.6330.98
79_V83_L0.6320.98
22_R46_D0.6150.98
100_A103_A0.6130.98
103_A106_A0.6110.98
50_L53_A0.6100.98
16_G112_V0.6090.98
18_L45_I0.6030.98
39_R46_D0.6000.98
63_Y74_L0.5960.98
17_A108_F0.5950.98
98_A102_L0.5900.98
22_R80_Y0.5890.98
109_A113_S0.5870.97
67_Q70_L0.5840.97
66_V71_T0.5750.97
31_P35_A0.5750.97
94_R97_R0.5710.97
6_H17_A0.5700.97
6_H14_L0.5590.97
86_I91_G0.5580.97
10_T14_L0.5570.97
23_G26_M0.5530.96
95_R106_A0.5510.96
15_S53_A0.5500.96
22_R49_L0.5460.96
101_F107_V0.5430.96
10_T13_A0.5400.96
39_R42_P0.5400.96
37_W42_P0.5270.95
34_Q89_K0.5250.95
24_L27_L0.5220.95
99_A119_S0.5190.95
75_V79_V0.5160.95
76_L107_V0.5150.95
99_A106_A0.5120.95
90_R96_V0.5100.94
110_Y119_S0.5030.94
1_Y56_L0.5030.94
12_V112_V0.5010.94
108_F111_I0.5000.94
Legend: The i and j are positions as given in the UniProt sequence. Only predictions with Prob ≥ 0.7 are listed. For all 3L/2 predictions, click on one of the links below.

Sco = ((raw_sco - min_sco)/(avg_sco - min_sco))/2 + 0.5
Prob = P(contact | Sco, seq80/√len)
seq80 = effective number of sequences, after reducing redundancy to 80% identity

HHsearch Results:
Legend: GREMLIN results (Prob ≥ 0.7) overlaid on top PDB hits. The grey/red filled circles underneath are pdb residue contacts (min distance < 5 Angstroms). The shade of the circles is based on the top 10 (or top 20 if e-value < 1E-20) HHsearch results which uses the overall probability and per-site alignment prob. Inter oligomeric contacts in the pdb are in shades of red.
PDB Chains Cov % HHΔ  
3qbgA 3 0.95 6.8 0.908 Contact Map
4l35A 3 0.5 4.3 0.917 Contact Map
4o6yA 2 0.9667 3.8 0.918 Contact Map
2jafA 3 0.95 3.1 0.922 Contact Map
1xioA 2 0.9333 3 0.923 Contact Map
4p02A 1 0.6333 2.9 0.923 Contact Map
4px7A 1 0.7833 2.1 0.929 Contact Map
3ddlA 2 0.975 2.1 0.929 Contact Map
4m5bA 1 0.4583 2 0.93 Contact Map
4xtlA 1 0.9833 2 0.93 Contact Map

Sequence Conservation (Image Generated using WebLogo v3)
Legend: Color is used to show Hydrophobicity (Blue: Hydrophilic, Green: Neutral and Black: Hydrophobic). Amount of gaps is represented by width.

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